Variant report
| Variant | rs17025239 |
|---|---|
| Chromosome Location | chr1:215898222-215898223 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr1:215896976..215899572-chr1:215900130..215902323,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:9)
| rs_ID | r2[population] |
|---|---|
| rs12407588 | 0.92[CHB][hapmap];0.93[JPT][hapmap];0.95[ASN][1000 genomes] |
| rs17025226 | 0.92[CHB][hapmap];0.93[JPT][hapmap];0.97[ASN][1000 genomes] |
| rs2364862 | 0.81[JPT][hapmap] |
| rs2364863 | 0.88[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes] |
| rs2820706 | 0.92[CHB][hapmap];0.93[CHD][hapmap];0.93[JPT][hapmap];0.97[ASN][1000 genomes] |
| rs4655286 | 0.81[JPT][hapmap] |
| rs4655423 | 0.87[MEX][hapmap] |
| rs4655425 | 0.91[ASN][1000 genomes] |
| rs4655426 | 0.92[CHB][hapmap];0.90[CHD][hapmap];0.92[JPT][hapmap];0.87[MEX][hapmap];0.97[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
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| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv430324 | chr1:215649163-216082605 | Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 11 gene(s) | inside rSNPs | diseases |
| 2 | nsv873171 | chr1:215825167-215925167 | Weak transcription Enhancers Flanking Active TSS Active TSS | Chromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
| 3 | nsv1006504 | chr1:215890460-216642124 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 7 gene(s) | inside rSNPs | diseases |
| 4 | nsv535288 | chr1:215890460-216642124 | Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 7 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
